Typing tool
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Typing tool
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Complete norovirus genomes
| LC597127 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 6..5096
ORF2: 5077..6699
ORF3: 6699..7505
LOCUS LC597127 7566 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2016/ GII.4Sydney2012 [P31]/STM137 RNA,
nearly comlete genome.
ACCESSION LC597127
VERSION LC597127.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Utsumi,T., Lusida,M.I., Dinana,Z., Wahyuni,R.M., Soegijanto,S.,
Soetjipto, Athiyyah,A.F., Sudarmo,S.M., Ranuh,R.G., Darma,A.,
Juniastuti, Yamani,L.N., Doan,Y.H., Shimizu,H., Ishii,K.,
Matsui,C., Deng,L., Abe,T., Katayama,K. and Shoji,I.
TITLE Molecular epidemiology and genetic diversity of norovirus infection
in children hospitalized with acute gastroenteritis in East Java,
Indonesia in 2015-2019
JOURNAL Infect Genet Evol 88, 104703 (2021)
PUBMED 33401005
REMARK DOI:10.1016/j.meegid.2020.104703
Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7566)
AUTHORS Utsumi,T. and Shoji,I.
TITLE Direct Submission
JOURNAL Submitted (09-DEC-2020) Contact:Takako Utsumi Kobe University
School of Medicine, Center for Infectious Diseases; 7-5-1
Kusunoki-cho Chuo-ku, Kobe, Hyogo 650-0017, Japan
FEATURES Location/Qualifiers
source 1..7566
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2016/ GII.4Sydney2012 [P31]/STM137"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2016"
CDS 6..5096
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BCN97292.1"
/translation="MASNDASVAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTREKIGKMLSTAASTLRACKDLGAYGLEILKLAMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPD
LKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETANKDGCLK
PKDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGS
EIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVA
TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGS
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYG
LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE
DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5077..6699
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97293.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6699..7505
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97294.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNLRDAAPARGSSSKPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgttg ccgctgttgc caacagcaac aacgacatcg
61 caaaatcttc aagtgacggt gtgttttcta acatggctgt cacttttaag cgggccctcg
121 gggcgcggcc taaacagccg cccccgaagg aaataccacc cagacccccg cgaccaccca
181 caccagaatt ggtcaaaaag atccctcctc ccccacccaa cggggaggat gaactagtgg
241 tctcttacag cgccaaagat ggcgtttccg gactgcctga gctcaccact gtcagacaac
301 cggaagaaac caacacggcg tttagtgtcc ccccactcaa ccaaagggag agcagggacg
361 ccaaggagcc actaactgga acaatcattg aaatgtggga tggagaaatc taccattacg
421 gcctgtacgt ggaacgaggt cttatacttg gtgtgcataa gccaccggca gccattagcc
481 ttgccaaggt cgagctagca ccgctctctt tgttctggag acctgtatac accccccagt
541 atctcatctc tccagacact cttaggagat tacatggaga gtcattcccc tacactgcat
601 ttgataacaa ttgctacgcc ttttgttgtt gggtattaga cctgaacgac tcatggctaa
661 gcaggagaat gattcagaga acaacaggtt tctttaggcc gtaccaggat tggaacagga
721 aacccctccc cactatggat gattccaaat taaagaaggt agccaacata ttcttgtgta
781 ctttgtcttc actattcacc aggcccatta aggacataat agggaagttg aaacctctta
841 acatccttaa cattctggct acatgtgatt ggaccttcgc aggcatagtg gaatccttaa
901 tactcttggc agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgatcg
961 cccccttgct aggtgattat gaactgcaag gacctgagga ccttgcagtg gaactggtcc
1021 caatagtgat gggggggata ggtttggtgc taggatttac cagagagaaa atcggaaaga
1081 tgttatcaac cgctgcatcc actttaagag cttgtaaaga ccttggtgca tacggactgg
1141 aaatcttaaa attggccatg aaatggttct tcccaaagaa agaggaagca aatgaactgg
1201 ctatggtgag atccatcgag gatgcagtgc tagacctcga ggcaattgaa aacaaccaca
1261 tgaccaccct actcaaagac aaagacagct tggcaaccta catgagaacc cttgaccttg
1321 aggaggagaa agccagaaag ctctcaacca aatctgcttc acccgatatt gtgggcacaa
1381 tcaactctct tctggcaaga atcgctgctg cacgttccct agtgcatcgg gcgaaagaag
1441 agctctccag caggccgaga cctgtcgttg tgatgatatc gggaagacca gggataggga
1501 aaactcacct tgccagggag ctggccaaga agatcgcggc ctccctcaca ggggaccagc
1561 gtgtgggtct tatcccacgc aatggtgtcg atcactggga cgcatacaag ggcgagagag
1621 ttgtcctatg ggacgactat ggaatgagca accccatcca tgatgccctt aggttgcagg
1681 agcttgctga cacttgcccc ctcacgctaa attgtgacag aattgagaac aaaggaaaag
1741 tctttgacag tgatgccata attatcacca ccaatctggc caacccagca ccgctggatt
1801 atgtcaactt tgaagcgtgc tcgagacgca ttgatttcct cgtgtacgca gaagcccctg
1861 aggtggagaa ggcaaagcgc gacttcccag gtcaacctga catgtggaag aacgctttca
1921 gtcctgactt ctcacacata aaactgtcat tggctccaca gggtggtttt gacaagaacg
1981 gcaacacccc acatggaaaa ggagtcatga agaccctcac cactggctcc ctcatcgccc
2041 gagcatcagg gttactccat gagaggctag acgaatatga actgcaaggc ccagccctca
2101 ccactttcaa ctttgaccgc aacaagatac ttgcttttag acagcttgct gctgaaaaca
2161 agtatgggct gatggacaca atgagagttg gaaaacagct caaggatgtc aagaccatgc
2221 cagacctcaa acaagcactt aagaacatcg cgataaagaa gtgccagata gtgtacaatg
2281 gtggcaccta cacacttgag gctgatggca agggtagtgt gaaagttgac aaagtgcaaa
2341 gtgccactgt gcagaccaac aatgaactag ccggtgccct acaccaccta aggtgcgcta
2401 gaatcagata ctatgttaag tgcgtccagg aggcactgta ttccatcatc caaatcgctg
2461 gggctgcatt cgtcaccacg cgcatcgcta agcgcatgaa tatacagaac ctctggtcca
2521 agccacaggt ggaagacaca gaagagacgg ccaacaaaga tggttgctta aagcccaaag
2581 atgaagagtt tgtcgtctca tccgacgaca tcaaaactga gggcaagaaa gggaagaaca
2641 agtccggccg tggtaagaag cacacagcct tttcaagcaa agggctcagt gatgaggagt
2701 acgatgagta caagagaatc agagaagaaa ggaatggcaa gtactccata gaggagtacc
2761 ttcaggacag agacaggtac tacgaggagg tggccattgc cagggcaacc gaagaggact
2821 tctgtgaaga agaagaggcc aaaatccggc agagaatttt cagaccaaca aggaaacaac
2881 gtaaagaaga gagggcctct ctcggcttgg tcacaggctc tgaaatcagg aagagaaacc
2941 cagaagactt caaacccaag ggaaagctgt gggctgatga cgacagaagt gttgactaca
3001 atgaaaagct caactttgag gccccaccaa gcatctggtc gcggatagtc aactttggtt
3061 caggctgggg tttctgggtc tcccccagtt tgtttataac atcaacccat gtcatacccc
3121 aaggtgcaaa agagttcttc ggggtcccta tcaagcaaat ccagatacac aagtcaggtg
3181 aattctgccg gttgagattc ccaaagccaa tcagaactga tgtgacgggc atgattctag
3241 aagaaggcgc gcccgagggg accgtggcca cactgctcat caagaggcca actggagagc
3301 tcatgcctct ggcagccaga atggggaccc atgcaaccat gaaaattcag gggcgcacag
3361 ttggagggca aatgggtatg ctcctgacag gatccaacgc caagagtatg gatctaggca
3421 caacaccagg cgactgcggc tgcccctaca tctacaagag ggggaatgac tacgtggtca
3481 taggggtcca tacggccgct gcccgtgggg gaaacactgt catatgtgcc acccagggga
3541 gtgagggaga agccacactt gaaggaggtg acagcaaagg gacatactgt ggcgcaccaa
3601 tattgggccc agggagtgct ccgaagctca gtaccaagac taagttttgg aggtcatcca
3661 caacaccact cccgcctggc acctatgaac cagcctacct cggtggtaaa gaccctagag
3721 tcaaaggtgg cccttcatta caacaagtta tgagggacca gctaaagcca ttcacagaac
3781 ccagaggcaa accaccaaga ccaaatgtgt tggaagctgc caagaaaacc atcatcaatg
3841 tccttgagca aacaattgac ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc
3901 ttgacaaaac cacctccagc ggccacccgc accacatgcg gaaaaacgac tgttggaatg
3961 gggagtcctt cacaggaaaa ttggctgatc aagcctccaa ggccaaccta atgtttgaag
4021 agggaaagaa catgactcca gtctacacag gtgcacttaa agatgagttg gtgaaaaccg
4081 ataaagttta tggtaaggtc aagaagaggc ttctgtgggg ttcagatctg gcgaccatga
4141 tacggtgtgc ccgagctttt ggaggcctta tggatgaact caaggcacac tgtgtcacac
4201 ttcctgtcag agttggtatg aacatgaatg aggatggccc catcatcttt gagaagcact
4261 ccagatatag ataccactat gatgctgatt attcccggtg ggactcaaca caacaaaggg
4321 atgtgctagc agcagcacta gaaatcatgg ttaagttctc cccagaacca cacctggccc
4381 agatagttgc agaagacctc ctttccccta gcgtgatgga tgtaggtgac tttcaaatat
4441 caataagtga gggtctcccc tctggggtac cttgtacctc ccagtggaat tccatcgccc
4501 actggctcct cactctgtgc gcactctctg aagtcacgga cctgtcccct gatatcattc
4561 aggccaactc cctgttctcc ttctatggtg atgatgagat tgtaagcaca gacataaagt
4621 tggacccaga gaagctgaca gcaaaactca aggagtacgg gctgaaacca acccgccccg
4681 acaaaactga aggacccctt gttatctctg aagacctgga tggcctgaca ttcctccgga
4741 gaactgtgac ccgtgatcca gctggctggt ttggaaaatt ggaacaaagt tcaattctca
4801 ggcaaatgta ctggaccagg ggtcccaacc atgaagatcc atttgaaaca atgataccac
4861 actcccaaag acccatacaa ttgatgtcct tgctgggcga ggctgcactc cacggcccgg
4921 cattctatag caaaattagc aaattagtca ttgcagagtt gaaggaaggt ggcatggact
4981 tttacgtacc cagacaagag ccaatgttca gatggatgag attctcagat ctgagcacgt
5041 gggagggcga tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc gagtgacgtc
5101 aacccatctg atgggtccgc agccaacctc gtcccagagg tcaacaatga ggttatggct
5161 ttggagcccg ttgttggtgc cgccattgcg gcacctgtag cgggccaaca aaatgtaatt
5221 gacccctgga ttagaaataa ttttgtacaa gcccctggtg gagagtttac agtatcccct
5281 agaaacgctc caggtgaaat actatggagc gcgcccttgg gccctgacct aaatccctac
5341 ctatcccatt tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatc
5401 ctcgcgggga atgcgttcac cgccgggaag gtcatatttg cagcagtccc accaaatttt
5461 ccaactgaag gcttgagccc cagccaggtc actatgttcc cccatatagt agtagatgtt
5521 aggcagttag aacctgtgct gattccctta cccgatgtta ggaataattt ctatcattat
5581 aatcaatcaa atgatcccac cattaagttg atagcaatgt tgtatacacc acttagggct
5641 aataatgctg gggatgatgt cttcacagtt tcttgccgag ttctcacgag accatccccc
5701 gattttgatt tcatatttct agtgccaccc acagttgagt caagaactaa accattctct
5761 gtcccagtct taactgttga ggagatgacc aattcaagat tccccattcc tttggaaaag
5821 ttgttcacgg gtcccagcag tgcctttgtt gtccaaccac aaaacggtag gtgcacgact
5881 gatggcgtgc tcctaggcac cacccaactg tctcctgtca acatctgcac cttcagagga
5941 gatgtcaccc atatcacagg tagtcgtaac tacacaatga atttggcttc tcaaaattgg
6001 agcaattatg acccaacaga agaaatccca gcccctctag gaactccaga ttttgttggg
6061 aagattcaag gcatgctcac ccaaaccaca aggacagatg gctcaacacg cggccacaaa
6121 gccacagtgt acactgggag cgccgacttt gctccaaaac tgggtagagt tcaatttgaa
6181 acagacacag accatgattt tgaagctaac caaaacacaa agttcacccc agttggtgtc
6241 atccaagatg gcagcaccac ccaccgaaat gaaccccaac agtgggtgct cccaagttac
6301 tcaggcagaa acactcccaa tgtgcatctg gcccccgctg tagcccccac ttttccgggt
6361 gagcaacttc tcttcttcag atctaccatg cccggatgca gcgggtaccc caacatggat
6421 ttggactgtc tgctccccca ggaatgggtg cagtacttct accaagaggc agccccagca
6481 caatctgatg tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgag
6541 tgtaagcttc ataaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt
6601 atccccccca atggttattt taggtttgat tcctgggtca accagtttta cacgcttgcc
6661 cccatgggaa atggaacggg gcgtagacgt gcactataat ggctggagct ttctttgctg
6721 gattggcatc tgatgtcctt ggctctgggc ttggttccct tatcaatgct ggggctgggg
6781 ccatcaacca aaaagttgag tttgaaaata acaggaaatt gcaacaagca tccttccaat
6841 tcagcagcaa tctacaacag gcttcctttc aacatgacaa agagatgctc caagcacaaa
6901 ttgaggccac caaaaggcta caacaggaaa tgatgaaagt taagcaggca atgctcctag
6961 agggtgggtt ctctgaaaca gatgcggccc gcggggcaat caacgccccc atgacaaaag
7021 ctttggactg gagcgggaca aggtactggg ctcccgatgc taggactaca acatacaatg
7081 caggccgctt ttccacccct caaccatcag gggcactgcc gggaagagtc aatcttaggg
7141 atgctgcccc tgctcggggt tcctccagta agccttctaa ttcttccact gctacttctg
7201 tgtactcaaa tcaaactatt tcaacgagac ttggttctac agctggttct ggtaccagtg
7261 tctcgagctt cccatcagct gcaaggacta ggagctgggt tgaggaccaa agtaggaatt
7321 tgtcaccttt catgaggggg gcccacaaca tatcgtttgt caccccacca tctagcagat
7381 cctctagcca aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg
7441 ctttcaacac gcgcaggcag ccactcttcg ctcacattcg taagcgaggg gagtcacggg
7501 tgtaatgtga aaagacaaaa ttgattatct ttcttttctt tagtgtcttt taaaaaaaaa
7561 aaaaaa
//